[OMPI users] Compiler error with PGI: pgcc-Error-Unknown switch: -pthread

Greeting Open MPI users! After being off this list for several years, I'm back! And I need help: I'm trying to compile OpenMPI 1.10.3 with the PGI compilers, version 17.3. I'm using the following configure options: ./configure \ --prefix=/usr/pppl/pgi/17.3-pkgs/openmpi-1.10.3 \ --disable-

Re: [OMPI users] Compiler error with PGI: pgcc-Error-Unknown switch: -pthread

ly pulled by libtool from the slurm libmpi.la <http://libmpi.la> and/or libslurm.la <http://libslurm.la> Workarounds are - rebuild slurm with PGI - remove the .la files (*.so and/or *.a are enough) - wrap the PGI compiler to ignore the -pthread option Hope this helps Gilles On M

Re: [OMPI users] Compiler error with PGI: pgcc-Error-Unknown switch: -pthread

do build quite a lot of code. And lots of versions of OpenMPI with multiple different compilers (and versions). On 04/03/2017 04:51 PM, Prentice Bisbal wrote: This is the second suggestion to rebuild Slurm The other from Åke Sandgren, who recommended this: This usually comes from slurm, so w

Re: [OMPI users] Compiler error with PGI: pgcc-Error-Unknown switch: -pthread

blem. Prentice On 04/03/2017 03:54 PM, Prentice Bisbal wrote: I've decided to work around this problem by creating a wrapper script for pgcc that strips away the -pthread argument, but my sed expression works on the command-line, but not in the script. I'm essentially reproduc

Re: [OMPI users] Compiler error with PGI: pgcc-Error-Unknown switch: -pthread

Okay. the additional -E doesn't work,either. :( Prentice Bisbal Lead Software Engineer Princeton Plasma Physics Laboratory http://www.pppl.gov On 04/03/2017 04:01 PM, Prentice Bisbal wrote: Nevermind. A coworker helped me figure this one out. Echo is treating the '-E' as an a

Re: [OMPI users] Compiler error with PGI: pgcc-Error-Unknown switch: -pthread

A coworker came up with another idea that works, too: newargs=sed s/-pthread//g < Try $ printf -- "-E" ... On 04/03/2017 04:03 PM, Prentice Bisbal wrote: Okay. the additional -E doesn't work,either. :( Prentice Bisbal Lead Software Engineer Princeton Plasma Physic

Re: [OMPI users] Compiler error with PGI: pgcc-Error-Unknown switch: -pthread

ion works, and another colleague also suggested this expressions, which appears to work, too: newargs=${@/-pthread/} Although I don't know how portable that is. I'm guessing that's very bash-specific syntax. Prentice On 04/03/2017 04:26 PM, Prentice Bisbal wrote: A coworker came

Re: [OMPI users] Compiler error with PGI: pgcc-Error-Unknown switch: -pthread

inux (I assume?), then you should be able to proceed as you shouldn't encounter the libtool bug/issue/*shrug* that is breaking macOS use. On Mon, Apr 3, 2017 at 5:14 PM, Reuti <mailto:re...@staff.uni-marburg.de>> wrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1

Re: [OMPI users] Compiler error with PGI: pgcc-Error-Unknown switch: -pthread

;-fPIC', but PGI accepts '-fPIC' for compatibility with other compilers, and I typed '-fPIC' out of habit. That's it! Those two changes allowed me to build and install OpenMPI 1.10.3 with PGI 17.3 Prentice On 04/03/2017 10:20 AM, Prentice Bisbal wrote: Greeting

[OMPI users] OpenMPI 2.1.0 build error: yes/lib: No such file or director

I'm getting the following error when I build OpenMPI 2.1.0 with GCC 5.4.0: /bin/sh ../../../../libtool --tag=CC --mode=link gcc -O3 -DNDEBUG -finline-functions -fno-strict-aliasing -pthread -module -avoid-version -Lyes/lib -o libmca_fs_lustre.la fs_lustre.lo fs_lustre_component.lo fs_lus

[OMPI users] OpenMPI 2.1.0: FAIL: opal_path_nfs

I'm trying to build OpenMPI 2.1.0 with GCC 5.4.0 on CentOS 6.8. After working around the '-Lyes/lib' errors I reported in my previous post, opal_path_nfs fails during 'make check' (see below). Is this failure critical, or is it something I can ignore and continue with my install? Googling only

Re: [OMPI users] OpenMPI 2.1.0 build error: yes/lib: No such file or director

provide the --with-lustre argument. Thanks Edgar On 4/26/2017 4:18 PM, Prentice Bisbal wrote: I'm getting the following error when I build OpenMPI 2.1.0 with GCC 5.4.0: /bin/sh ../../../../libtool --tag=CC --mode=link gcc -O3 -DNDEBUG -finline-functions -fno-strict-aliasing -pt

Re: [OMPI users] OpenMPI 2.1.0: FAIL: opal_path_nfs

That's what I figured, but I wanted to check first. Any idea of exactly what it's trying to check? Prentice On 04/26/2017 05:54 PM, r...@open-mpi.org wrote: You can probably safely ignore it. On Apr 26, 2017, at 2:29 PM, Prentice Bisbal wrote: I'm trying to build OpenMPI

[OMPI users] OpenMPI 2.1.0 + PGI 17.3 = asm test failures

I'm building Open MPI 2.1.0 with PGI 17.3, and now I'm getting 'illegal instruction' errors during 'make check': ../../config/test-driver: line 107: 65169 Illegal instruction "$@" > $log_file 2>&1 FAIL: atomic_math - 1 threads: Passed That's just one example of the error output. See all r

Re: [OMPI users] OpenMPI 2.1.0 + PGI 17.3 = asm test failures

Update: removing the -fast switch caused this error to go away. Prentice On 04/27/2017 06:00 PM, Prentice Bisbal wrote: I'm building Open MPI 2.1.0 with PGI 17.3, and now I'm getting 'illegal instruction' errors during 'make check': ../../config/test-d

Re: [OMPI users] OpenMPI 2.1.0 + PGI 17.3 = asm test failures

ntice Bisbal wrote: Update: removing the -fast switch caused this error to go away. Prentice On 04/27/2017 06:00 PM, Prentice Bisbal wrote: I'm building Open MPI 2.1.0 with PGI 17.3, and now I'm getting 'illegal instruction' errors during 'make check': ../../

Re: [OMPI users] OpenMPI 2.1.0 + PGI 17.3 = asm test failures

ight. Duh. On May 1, 2017, at 11:21 AM, Prentice Bisbal wrote: Jeff, Why IBM? This problem is caused by the PGI compilers, so shouldn't this be directed towards NVidia, which now owns PGI? Prentice On 04/29/2017 07:37 AM, Jeff Squyres (jsquyres) wrote: IBM: can someone check to s

Re: [OMPI users] Strange OpenMPI errors on building Caffe 1.0

This error should really be posted to the caffe mailing list. This is an error with caffe. Most likely, you are not specifying the location to your Open MPI installation properly. And Caffe definitely depends on OpenMPI you errors: .build_release/lib/libcaffe.so: undefined reference to `ompi

Re: [OMPI users] Strange OpenMPI errors showing up in Caffe rc5 build

On 05/04/2017 09:08 PM, gil...@rist.or.jp wrote: William, the link error clearly shows libcaffe.so does require C++ bindings. did you build caffe from a fresh tree ? what if you ldd libcaffe.so nm libcaffe.so | grep -i ompi if libcaffe.so does require mpi c++ bindings, it should depend on

Re: [OMPI users] Strange OpenMPI errors showing up in Caffe rc5 build

n't have any answers for this issue (except use the Docker image). -William L. -------- *From:* users on behalf of Prentice Bisbal *Sent:* Friday, May 5, 2017 7:47:39 AM *To:* users@lists.open-mpi.org *Subject:* Re: [OMPI u

[OMPI users] bind-to-core with AMD CMT?

he experts here. -- Prentice Bisbal Lead Software Engineer Princeton Plasma Physics Laboratory http://www.pppl.gov ___ users mailing list users@lists.open-mpi.org https://lists.open-mpi.org/mailman/listinfo/users

Re: [OMPI users] bind-to-core with AMD CMT?

" Prentice On 08/24/2017 03:11 PM, Prentice Bisbal wrote: OpenMPI Users, I am using AMD processocers with CMT, where two cores constitute a module, and there is only one FPU per module, so each pair of cores has to share a single FPU. I want to use only one core per module so there is

Re: [OMPI users] Building OpenMPI 10.4 with PGI fortran 10.8 and gcc

How good are you with reading/editing Makefiles? I find problems like this are usually solved by searching the Makefiles for the offending line(s) and removing the offending switch. In a well-designed make environment, you should only have to edit the top-level Makefile. In the worst case, you'll

Re: [OMPI users] Test Program works on 1, 2 or 3 nodes. Hangs on 4 or more nodes.

Ethan Deneault wrote: > All, > > I am running Scientific Linux 5.5, with OpenMPI 1.4 installed into the > /usr/lib/openmpi/1.4-gcc/ directory. I know this is typically > /opt/openmpi, but Red Hat does things differently. I have my PATH and > LD_LIBRARY_PATH set correctly; because the test program

Re: [OMPI users] Test Program works on 1, 2 or 3 nodes. Hangs on 4 or more nodes.

Ashley Pittman wrote: > This smacks of a firewall issue, I thought you'd said you weren't using one > but now I read back your emails I can't see anywhere where you say that. Are > you running a flrewall or any iptables rules on any of the nodes? It looks > to me like you may have some setup f

Re: [OMPI users] open MPI please recommend a debugger for open MPI

Jack Bryan wrote: > Hi, > > Would you please recommend a debugger, which can do debugging for > parallel processes > on Open MPI systems ? > > I hope that it can be installed without root right because I am not a > root user for our > MPI cluster. > > Any help is appreciated. > Well-placed

Re: [OMPI users] open MPI please recommend a debugger for open MPI

Jeff Squyres wrote: > On Nov 3, 2010, at 10:58 AM, Prentice Bisbal wrote: > >> Well-placed printf statements are tough to beat. > > Ouch. > > Please read: > > - http://blogs.cisco.com/ciscotalk-performance/parallel_debugging/. > - http://cw.squyres.com/co

Re: [OMPI users] open MPI please recommend a debugger for open MPI

Jeff Squyres wrote: > On Nov 3, 2010, at 3:59 PM, Prentice Bisbal wrote: > >> So then to paraphrase Jon Stewart, you'd like to politely disagree with me? > > I think that would be quite reasonable. > > ;-) Perhaps we could discuss our differences over a spot of

Re: [OMPI users] Open MPI data transfer error

Jack Bryan wrote: > > Hi, > > In my Open MPI program, one master sends data to 3 workers. > > Two workers can receive their data. > > But, the third worker can not get their data. > > Before sending data, the master sends a head information to each worker > receiver > so that each worker

Re: [OMPI users] Open MPI data transfer error

We can't help you with your coding problem without seeing your code. Jack Bryan wrote: > Thanks, > I have used "cout" in c++ to print the values of data. > > The sender sends correct data to correct receiver. > > But, receiver gets wrong data from correct sender. > > why ? > > thanks >

Re: [OMPI users] Open MPI data transfer error

mers, with many bugs ironed out. > So typically it is unlikely openMPI is the source of your error. > Without seeing your code the only logical conclusion is that something > is wrong with your programming. > > On Fri, Nov 5, 2010 at 10:52 AM, Prentice Bisbal <mailto:prent...@ia

Re: [OMPI users] Creating 64-bit objects?

How are you specifying these flags? Are you setting them as environment variables, or are you adding them to the configure command line? Can you show us the exact commands you used? Prentice Price, Brian M (N-KCI) wrote: > OpenMPI version: 1.3.3 & 1.4.3 > > Platform: IBM P5 > > Issue: I want

Re: [OMPI users] [Rocks-Discuss] compiling Openmpi on solaris studio express

No, it looks like ld is being called with the option -path, and your linker doesn't use that switch. Grep you Makefile(s) for the string "-path". It's probably in a statement defining LDFLAGS somewhere. When you find it, replace it with the equivalent switch for your compiler. You may be able to o

Re: [OMPI users] [Rocks-Discuss] compiling Openmpi on solaris studio express

.com>> wrote: > > This problem looks a lot like a thread from earlier today. Can you > look at this > ticket and see if it helps? It has a workaround documented in it. > > https://svn.open-mpi.org/trac/ompi/ticket/2632 > > Rolf > > > On

Re: [OMPI users] Help!!!!!!!!!!!!Openmpi instal for ubuntu 64 bits

Jeff Squyres wrote: > Please note that this is an English-speaking list. I don't know if Tim > speaks ?Spanish?, but I unfortunately don't. :-) > s/Spanish/Portuguese/ -- Prentice

Re: [OMPI users] Method for worker to determine its "rank" on a single machine?

On 12/10/2010 07:55 AM, Ralph Castain wrote: Ick - I agree that's portable, but truly ugly. Would it make sense to implement this as an MPI extension, and then perhaps propose something to the Forum for this purpose? I think that makes sense. As core and socket counts go up, I imagine the n

Re: [OMPI users] How closely tied is a specific release of OpenMPI to the host operating system and other system software?

Jeffrey A Cummings wrote: > I use OpenMPI on a variety of platforms: stand-alone servers running > Solaris on sparc boxes and Linux (mostly CentOS) on AMD/Intel boxes, > also Linux (again CentOS) on large clusters of AMD/Intel boxes. These > platforms all have some version of the 1.3 OpenMPI stre

Re: [OMPI users] OpenMPI version syntax?

rpm -qi might give you more detailed information. If not, as a last resort, you can download and installed the SRPM and then look at the name of the tarball in /usr/src/redhat/SOURCES. Prentice Jeffrey A Cummings wrote: > The context was wrt the OpenMPI version that is bundled with a specific >

Re: [OMPI users] libmpi.so.0 not found during gdb debugging

swagat mishra wrote: > hello everyone, > i have a network of systems connected over lan with each computer > running ubuntu. openmpi 1.4.x is installed on 1 machine and the > installation is mounted on other nodes through Networking File > System(NFS). the source program and compiled file(a.out) ar

[OMPI users] What's wrong with this code?

One of the researchers I support is writing some Fortran code that uses Open MPI. The code is being compiled with the Intel Fortran compiler. This one line of code: integer ierr,istatus(MPI_STATUS_SIZE) leads to these errors: $ mpif90 -o simplex simplexmain579m.for simplexsubs579 /usr/local/open

Re: [OMPI users] What's wrong with this code?

Tim Prince wrote: > On 2/22/2011 1:41 PM, Prentice Bisbal wrote: >> One of the researchers I support is writing some Fortran code that uses >> Open MPI. The code is being compiled with the Intel Fortran compiler. >> This one line of code: >> >> integer ierr,ist

Re: [OMPI users] What's wrong with this code?

Jeff Squyres wrote: > On Feb 22, 2011, at 4:41 PM, Prentice Bisbal wrote: > >> One of the researchers I support is writing some Fortran code that uses >> Open MPI. The code is being compiled with the Intel Fortran compiler. >> This one line of code: >> >>

Re: [OMPI users] What's wrong with this code?

Jeff Squyres wrote: > On Feb 23, 2011, at 9:48 AM, Tim Prince wrote: > >>> I agree with your logic, but the problem is where the code containing >>> the error is coming from - it's comping from a header files that's a >>> part of Open MPI, which makes me think this is a cmpiler error, since >>> I'

Re: [OMPI users] What's wrong with this code?

Tim Prince wrote: > On 2/23/2011 8:27 AM, Prentice Bisbal wrote: >> Jeff Squyres wrote: >>> On Feb 23, 2011, at 9:48 AM, Tim Prince wrote: >>> >>>>> I agree with your logic, but the problem is where the code containing >>>>> the error i

Re: [OMPI users] What's wrong with this code?

It's not the latest version, but it's only about 1 year old. $ ifort --version ifort (IFORT) 11.1 20100203 Copyright (C) 1985-2010 Intel Corporation. All rights reserved. -- Prentice > > > On Feb 23, 2011, at 11:51 AM, Tim Prince wrote: > >> On 2/23/2011 8:27 AM, Pren

Re: [OMPI users] What's wrong with this code?

Jeff Squyres wrote: > On Feb 23, 2011, at 2:20 PM, Prentice Bisbal wrote: > >> I suspected that and checked for it earlier. I just double-checked, and >> that is not the problem. Out of the two source files, 'include mpif.h' >> appears once, and 'use mpi&#x

Re: [OMPI users] What's wrong with this code?

Jeff Squyres wrote: > On Feb 23, 2011, at 3:36 PM, Prentice Bisbal wrote: > >> It's using MPI_STATUS_SIZE to dimension istatus before mpif.h is even >> read! Correcting the order of the include and declaration statements >> fixed the problem. D'oh! > >

Re: [OMPI users] OpenMPI 1.2.x segfault as regular user

It's not hard to test whether or not SELinux is the problem. You can turn SELinux off on the command-line with this command: setenforce 0 Of course, you need to be root in order to do this. After turning SELinux off, you can try reproducing the error. If it still occurs, it's SELinux, if it does

Re: [OMPI users] OpenMPI 1.2.x segfault as regular user

On 03/20/2011 06:22 PM, kevin.buck...@ecs.vuw.ac.nz wrote: > >> It's not hard to test whether or not SELinux is the problem. You can >> turn SELinux off on the command-line with this command: >> >> setenforce 0 >> >> Of course, you need to be root in order to do this. >> >> After turning SELinux o

Re: [OMPI users] Parallel Computation under WiFi for Beginners

network using TP-LINK access >> point. >> >> I am wondering if you have tutorial and source code as demo of simple >> parallel computing for 2 laptops to perform simultaneous computation. >> >> Riza >> _________

Re: [OMPI users] printf and scanf problem of C code compiled with Open MPI

On 03/29/2011 01:29 PM, Meilin Bai wrote: > Dear open-mpi users: > > I come across a little problem when running a MPI C program compiled > with Open MPI 1.4.3. A part of codes as follows: > > MPI_Init(&argc, &argv); > MPI_Comm_size(MPI_COMM_WORLD, &numprocs); > MPI_Comm_rank(MPI_CO

Re: [OMPI users] SGE and openmpi

On 04/06/2011 07:09 PM, Jason Palmer wrote: > Hi, > I am having trouble running a batch job in SGE using openmpi. I have read > the faq, which says that openmpi will automatically do the right thing, but > something seems to be wrong. > > Previously I used MPICH1 under SGE without any problems.

[OMPI users] Anyone with Visual Studio + MPI Experience

Does anyone on this list have experience using MS Visual Studio for MPI development? I'm supporting a Windows user who has been doing Fortran programming on Windows using an ANCIENT version of Digital Visual Fortran (I know, I know - using "ancient" and "Digital" in the same sentence is redundant.)

Re: [OMPI users] Anyone with Visual Studio + MPI Experience

t not the other. > > Joe > > -Original Message- > From: users-boun...@open-mpi.org [mailto:users-boun...@open-mpi.org] On > Behalf Of Prentice Bisbal > Sent: Thursday, June 30, 2011 1:42 PM > To: Open MPI Users > Subject: [OMPI users] Anyone with Visual Studio +

Re: [OMPI users] mpi & mac

On 07/06/2011 10:42 AM, Constantinos Makassikis wrote: > On Tue, Jul 5, 2011 at 9:48 PM, Robert Sacker > wrote: > > Hi all, > > Hello ! > > I need some help. I'm trying to run C++ code in Xcode on a Mac Pro > Desktop (OS 10.6) and utilize all 8 cores . My ult

Re: [OMPI users] Anyone with Visual Studio + MPI Experience

Miguel, I'm using VS 2010 Professional + Intel Visual Fortran. I don't have the "Debugger to Launch" option in my version (or I'm looking in the wrong place), and don't see MPI options any where. Do you have any additional software installed, like the HPC Pack 2008? Prentice On 07/04/2011 04:32

Re: [OMPI users] Anyone with Visual Studio + MPI Experience

Miguel, Thanks for the assistance. I don't have the MPI options you spoke of, so I figured that might have been part of the HPC Pack. I found a couple of web pages that helped me make progress. I'm not 100% there, but I'm much closer, say 85% of the way there. Now I can get an Fortran+MPI program

Re: [OMPI users] Role of ethernet interfaces of startup of openmpi job using IB

On 09/27/2011 07:50 AM, Jeff Squyres wrote: > On Sep 27, 2011, at 6:35 AM, Salvatore Podda wrote: > >> We would like to know if the ethernet interfaces play any role in the >> startup phase of an opempi job using InfiniBand >> In this case, where we can found some literature on this topic?

Re: [OMPI users] Role of ethernet interfaces of startup of openmpi job using IB

On 09/27/2011 05:30 PM, Jeff Squyres wrote: > On Sep 27, 2011, at 5:03 PM, Prentice Bisbal wrote: > >> To clarify, is IP/Ethernet required, or will IPoIB be used if it's >> configured on the nodes? Would this make a difference. > > IPoIB is fine, although I've

Re: [OMPI users] wiki and "man mpirun" odds, and a question

Paul, I'm sure this isn't the response you want to hear, but I'll suggest it anyway: Queuing systems can forward the submitters environment if desired. For example, in SGE, the -V switch forwards all the environment variables to the job's environment, so if there's one you can use to launch your

Re: [OMPI users] openmpi - gfortran and ifort conflict

On 12/14/2011 12:21 PM, Micah Sklut wrote: > Hi Gustav, > > I did read Price's email: > > When I do "which mpif90", i get: > /opt/openmpi/intel/bin/mpif90 > which is the desired directory/binary > > As I mentioned, the config log file indicated it was using ifort, and > had no mention of gfortran.

Re: [OMPI users] openmpi - gfortran and ifort conflict

On 12/14/2011 01:20 PM, Fernanda Oliveira wrote: > Hi Micah, > > I do not know if it is exactly what you need but I know that there are > environment variables to use with intel mpi. They are: I_MPI_CC, > I_MPI_CXX, I_MPI_F77, I_MPI_F90. So, you can set this using 'export' > for bash, for instance

Re: [OMPI users] openmpi - gfortran and ifort conflict

On 12/14/2011 03:29 PM, Micah Sklut wrote: > Okay thanks Prentice. > > I understand what you are saying about specifying the compilers during > configure. > Perhaps, that alone would have solved the problem, but removing the > 1.4.2 ompi installation worked as well. > > Micah > Well, to clarify my

Re: [OMPI users] openmpi - gfortran and ifort conflict

On 12/14/2011 03:39 PM, Jeff Squyres wrote: > On Dec 14, 2011, at 3:21 PM, Prentice Bisbal wrote: > >> For example, your configure command, >> >> ./configure --prefix=/opt/openmpi/intel CC=gcc CXX=g++ F77=ifort FC=ifort >> >> Doesn't tell Open MPI to use

Re: [OMPI users] Installation of openmpi-1.4.4

Is the path to your opempi libraries in your LD_LIBRARY_PATH? -- Prentice On 12/21/2011 01:56 PM, amosl...@gmail.com wrote: > Dear OMPI Users, > I have just read the messages from Martin Rushton and Jeff > Squyres and have been having the same problem trying to get > openmp-1.4.4 to wo

Re: [OMPI users] ompi + bash + GE + modules

On 01/12/2012 08:40 AM, Dave Love wrote: > Surely this should be on the gridengine list -- and it's in recent > archives -- but there's some ob-openmpi below. Can Notre Dame not get > the support they've paid Univa for? This is, in fact, in the recent gridengine archives. I brought up this probl

Re: [OMPI users] OpenMPI: How many connections?

I would like to nominate the quote below for the best explanation of how a piece of software works that I've ever read. Kudos, Jeff. On 01/26/2012 04:38 PM, Jeff Squyres wrote: > You send a message, a miracle occurs, and the message is received on the > other side. -- Prentice

Re: [OMPI users] [Open MPI Announce] Open MPI v1.4.5 released

On 02/15/2012 07:44 AM, Reuti wrote: > Hi, > > Am 15.02.2012 um 03:48 schrieb alexalex43210: > >> But I am a novice for the parallel computation, I often use Fortran to >> compile my program, now I want to use the Parallel, can you give me some >> help how to begin? >> PS: I learned about OP

Re: [OMPI users] [EXTERNAL] Re: Question regarding osu-benchamarks 3.1.1

On 02/29/2012 03:15 PM, Jeffrey Squyres wrote: > On Feb 29, 2012, at 2:57 PM, Jingcha Joba wrote: > >> So if I understand correctly, if a message size is smaller than it will use >> the MPI way (non-RDMA, 2 way communication), if its larger, then it would >> use the Open Fabrics, by using the ib

Re: [OMPI users] ssh between nodes

On 02/29/2012 04:51 PM, Martin Siegert wrote: > Hi, > > On Wed, Feb 29, 2012 at 09:09:27PM +, Denver Smith wrote: >>Hello, >>On my cluster running moab and torque, I cannot ssh without a password >>between compute nodes. I can however request multiple node jobs fine. I >>was wo

Re: [OMPI users] Simple question on GRID

On 03/01/2012 12:10 AM, Shaandar Nyamtulga wrote: > Hi > I have two Beowulf clusters (both Ubuntu 10.10, one is OpenMPI, one is > MPICH2). > They run separately in their local network environment.I know there is > a way to integrate them through Internet, presumably by Grid software, > I guess. Is

Re: [OMPI users] redirecting output

On 03/30/2012 11:12 AM, Tim Prince wrote: > On 03/30/2012 10:41 AM, tyler.bal...@huskers.unl.edu wrote: >> >> >> I am using the command mpirun -np nprocs -machinefile machines.arch >> Pcrystal and my output strolls across my terminal I would like to >> send this output to a file and I cannot figur

Re: [OMPI users] regarding the problem occurred while running anmpi programs

Actually, he should leave the ":$LD_LIBRARY_PATH" on the end. That way if LD_LIBRARY_PATH is already defined, the Open MPI directory is just prepended to LD_LIBRARY_PATH. Omitting ":$LD_LIBRARY_PATH" from his command could cause other needed elements of LD_LIBRARY_PATH to be lost, causing other run

Re: [OMPI users] Building openmpi from src rpm: rpmbuild --rebuild errors with 'cpio: MD5 sum mismatch' (since openmpi 1.4.5)

On 05/31/2012 02:04 AM, livelfs wrote: > Hi > Since 1.4.5 openmpi release, it is no longer possible to build openmpi > binary with rpmbuild --rebuild if system rpm package version is 4.4.x, > like in SLES10, SLES11, RHEL/CentOS 5.x. > > For instance, on CentOS 5.8 x86_64 with rpm 4.4.2.3-28.el5_8:

Re: [OMPI users] Building openmpi from src rpm: rpmbuild --rebuild errors with 'cpio: MD5 sum mismatch' (since openmpi 1.4.5)

On 05/31/2012 07:26 AM, Jeff Squyres wrote: > On May 31, 2012, at 2:04 AM, livelfs wrote: > >> Since 1.4.5 openmpi release, it is no longer possible to build openmpi >> binary with rpmbuild --rebuild if system rpm package version is 4.4.x, like >> in SLES10, SLES11, RHEL/CentOS 5.x. >> >> For ins

Re: [OMPI users] Infiniband requirements

Gus Correa wrote: > Hi Jim, list > > 1) Your first question: > > I opened a thread on this list two months or so ago about a similar > situation: when OpenMPI would use/not use libnuma. > I asked a question very similar to your question about IB support, > and how the configure script would provi

Re: [OMPI users] Network connection check

Jeff Squyres wrote: > On Jul 22, 2009, at 10:05 AM, vipin kumar wrote: > >> Actually requirement is how a C/C++ program running in "master" node >> should find out whether "slave" node is reachable (as we check this >> using "ping" command) or not ? Because IP address may change at any >> time, t

[OMPI users] RETRY EXCEEDED ERROR status number 12

96 microseconds * (2^btl_openib_ib_timeout) See the InfiniBand spec 1.2 (section 12.7.34) for more details. -- Prentice Bisbal Linux Software Support Specialist/System Administrator School of Natural Sciences Institute for Advanced Study Princeton, NJ

[OMPI users] MPI_Comm_dup hangs

I have a problem with MPI_Comm_dup. When I call it in a function, it causes my application to hang. Are they any common causes for a problem like this? I'm using OpenMPI 1.2.8. Are there any known bugs that could be causing this? My program seems to hang when it gets to MPI_Comm_dup. Here's an exa

Re: [OMPI users] MPI_Comm_dup hangs

Nevermind... I figured this one out on my own. I was calling foo() from inside an if (rank == 0) block. Since MPI_Comm_dup is a collective operation, it was waiting for all the other nodes to also call MPI_Comm_dup. Oops. -- Prentice Prentice Bisbal wrote: > I have a problem with MPI_Comm_

[OMPI users] Difficulty with MPI_Unpack

Hello, everyone. I'm having trouble packing/unpacking this structure: typedef struct{ int index; int* coords; }point; The size of the coords array is not known a priori, so it needs to be a dynamic array. I'm trying to send it from one node to another using MPI_Pack/MPI_Unpack as shown below.

Re: [OMPI users] Difficulty with MPI_Unpack

Jed Brown wrote: > On Sun, 07 Feb 2010 22:40:55 -0500, Prentice Bisbal wrote: >> Hello, everyone. I'm having trouble packing/unpacking this structure: >> >> typedef struct{ >> int index; >> int* coords; >> }point; >> >> The size of the

[OMPI users] Similar question about MPI_Create_type

Hello, again MPU Users: This question is similar to my earlier one about MPI_Pack/Unpack, I'm trying to send the following structure, which has a dynamically allocated array in it, as a MPI derived type using MPI_Create_type_struct(): typedef struct{ int index; int* coords; }point; I woul

Re: [OMPI users] Similar question about MPI_Create_type

I hit send to early on my last reply, please forgive me... Jed Brown wrote: > On Mon, 08 Feb 2010 13:54:10 -0500, Prentice Bisbal wrote: >> but I don't have that book handy > > The standard has lots of examples. > > http://www.mpi-forum.org/docs/docs.html Th

Re: [OMPI users] Similar question about MPI_Create_type

Prentice Bisbal wrote: > I hit send to early on my last reply, please forgive me... > > Jed Brown wrote: >> On Mon, 08 Feb 2010 13:54:10 -0500, Prentice Bisbal wrote: >>> but I don't have that book handy >> The standard has lots of examples. >> >

Re: [OMPI users] Sending relatively large messages with high frequency

> ___ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users -- Prentice Bisbal Linux Software Support Specialist/System Administrator School of Natural Sciences Institute for Advanced Study Princeton, NJ

Re: [OMPI users] Sending relatively large messages with high frequency

erflowing the buffer. Are you using MPI_Pack, by any chance? -- Prentice Bisbal Linux Software Support Specialist/System Administrator School of Natural Sciences Institute for Advanced Study Princeton, NJ

Re: [OMPI users] running external program on same processor (Fortran)

__ >> Do you want a Hotmail account? Sign-up now - Free >> ___ >> users mailing list >> us...@open-mpi.org >> http://www.open-mpi.org/mailman/listinfo.cgi/users > > ___ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users > -- Prentice Bisbal Linux Software Support Specialist/System Administrator School of Natural Sciences Institute for Advanced Study Princeton, NJ

[OMPI users] Limit to number of processes on one node?

is program to work. Is this a bug, part of the standard, or design/implementation decision? -- Prentice Bisbal Linux Software Support Specialist/System Administrator School of Natural Sciences Institute for Advanced Study Princeton, NJ

Re: [OMPI users] Limit to number of processes on one node?

Sorry. I meant to include that. I'm using version 1.2.8. Ralph Castain wrote: > It helps to have some idea what version you are talking about... > > On Mar 3, 2010, at 9:51 AM, Prentice Bisbal wrote: > >> Is there a limit on how many MPI processes can run on a single ho

Re: [OMPI users] running external program on same processor (Fortran)

Reuti wrote: > Are you speaking of the same? Good point, Reuti. I was thinking of a cluster scheduler like SGE or Torque. > > Am 03.03.2010 um 17:32 schrieb Prentice Bisbal: > >> Terry Frankcombe wrote: >>> Surely this is the problem of the scheduler that your sys

Re: [OMPI users] Limit to number of processes on one node?

Eugene Loh wrote: > Prentice Bisbal wrote: > >> Is there a limit on how many MPI processes can run on a single host? >> >> I have a user trying to test his code on the command-line on a single >> host before running it on our cluster like so: >> >> mpir

Re: [OMPI users] Limit to number of processes on one node?

Eugene Loh wrote: > Prentice Bisbal wrote: >> Eugene Loh wrote: >> >>> Prentice Bisbal wrote: >>> >>>> Is there a limit on how many MPI processes can run on a single host? >>>> > Depending on which OMPI release you're

Re: [OMPI users] Limit to number of processes on one node?

Ralph Castain wrote: > On Mar 3, 2010, at 12:16 PM, Prentice Bisbal wrote: > >> Eugene Loh wrote: >>> Prentice Bisbal wrote: >>>> Eugene Loh wrote: >>>> >>>>> Prentice Bisbal wrote: >>>>> >>>>>> Is th

Re: [OMPI users] Limit to number of processes on one node?

Ralph Castain wrote: > On Mar 4, 2010, at 7:27 AM, Prentice Bisbal wrote: > >> >> Ralph Castain wrote: >>> On Mar 3, 2010, at 12:16 PM, Prentice Bisbal wrote: >>> >>>> Eugene Loh wrote: >>>>> Prentice Bisbal wrote

Re: [OMPI users] Limit to number of processes on one node?

Ralph Castain wrote: > On Mar 4, 2010, at 7:51 AM, Prentice Bisbal wrote: > >> >> Ralph Castain wrote: >>> On Mar 4, 2010, at 7:27 AM, Prentice Bisbal wrote: >>> >>>> Ralph Castain wrote: >>>>> On Mar 3, 2010, at 12:16 PM, Prentic

Re: [OMPI users] 3D domain decomposition with MPI

Gus Correa wrote: > At each time step you exchange halo/ghost sections across > neighbor subdomains, using MPI_Send/MPI_Recv, > or MPI_SendRecv. > Even better if you use non-blocking calls > MPI_ISend/MPI_[I]Recv/MPI_Wait[all]. > Read about the advantages of non-blocking communication > in the "M

Re: [OMPI users] Hide Abort output

I would suggest that MPI_Abort take a string as an argument, and print out the that string when MPI_Abort is called. If a programmer wanted to NOT have an abort message, they could just omit the argument: MPI_Abort("Could not open file foo"); or MPI_Abort(); This would be similar to Perl's die

Re: [OMPI users] Hide Abort output

, wouldn't it? Nevermind... Prentice Prentice Bisbal wrote: > I would suggest that MPI_Abort take a string as an argument, and print > out the that string when MPI_Abort is called. If a programmer wanted to > NOT have an abort message, they could just omit the argument: > >

Re: [OMPI users] libmpi_f90.so.0 problem

Jeff Squyres wrote: > On Apr 14, 2010, at 10:17 PM, max marconi wrote: > >> I have just installed openmpi on my system and tried to run the example >> Hello_f90. The following error was generated upon executing. >> >> : error while loading shared libraries: libmpi_f90.so.0: cannot open >> shared o

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